recipe bioconductor-hibed

HiBED

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/HiBED.html

License:

GPL-3

Recipe:

/bioconductor-hibed/meta.yaml

Hierarchical deconvolution for extensive cell type resolution in the human brain using DNA methylation. The HiBED deconvolution estimates proportions up to 7 cell types (GABAergic neurons, glutamatergic neurons, astrocytes, microglial cells, oligodendrocytes, endothelial cells, and stromal cells) in bulk brain tissues.

package bioconductor-hibed

versions:

1.0.0-0

depends bioconductor-annotationhub:

>=3.10.0,<3.11.0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-flowsorted.blood.epic:

>=2.6.0,<2.7.0

depends bioconductor-flowsorted.dlpfc.450k:

>=1.38.0,<1.39.0

depends bioconductor-minfi:

>=1.48.0,<1.49.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

depends r-dplyr:

depends r-tibble:

requirements:

additional platforms:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-hibed

and update with::

   mamba update bioconductor-hibed

To create a new environment, run:

mamba create --name myenvname bioconductor-hibed

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/bioconductor-hibed:<tag>

(see `bioconductor-hibed/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-hibed/README.html)